In this context, the U.S. government is maintaining torture centers, called black sites, operated by both known and secret intelligence agencies.
Of these prisoners being held by the U.S., some were suspected of being from the senior ranks of al Qaeda, referred to in U.S. military terms as "high value detainees."
According to the Swiss senator Dick Marty's reports on Secret Detentions and Illegal Transfers of Detainees involving Council of Europe Member States, about a hundred persons had been kidnapped by the CIA on European territory and subsequently rendered to countries where they were tortured.
But, before September 2006, many of those detainees suspected of having the highest intelligence value were not detained at Guantanamo, but were held at CIA's black sites in Eastern Europe and other countries, including Afghanistan.
In August 2010, it was reported that four high-value detainees: Abu Zubaydah, Abd al-Rahim al-Nashiri, Ramzi bin al-Shibh, and Mustafa al-Hawsawi, had first been transferred to Guantanamo on September 24, 2003.
As a result, the US allegedly continued to hold many ghost detainees outside Guantanamo Bay and the United States in order to avoid any review of their cases.
Critics, and elements of the FBI, had long speculated that the captives held in the secret facilities had been subjected to actual torture.
Article 5 says that combatants suspected of violations of the Conventions are to be afforded POW protection until the captors have convened a "competent tribunal."
In Rasul v. Bush (2004), the US Supreme Court ruled that detainees held by the United States did have the habeas corpus right to challenge their detentions before a competent tribunal.
Similarly, on March 14, 2003, five days before the US started its 2003 invasion of Iraq, the OLC issued a memo to William J. Haynes, General Counsel of the United States Department of Defense, concluding that federal laws against the use of torture and other coercion did not apply to interrogations overseas.
[20] Secretary Rumsfeld assured the world that the detainees held at the Guantanamo Bay Naval Base were going to be treated in a manner consistent with the treatment of Geneva Convention POWs.
In 2004, confidential memos surfaced that discussed the limits to how much pain, discomfort and fear could be used in the interrogation of detainees in the global war on terror.
In October 2005, the report focused on pretrial detention of suspects in the war on terrorism, including those held in Guantanamo Bay and Afghanistan.
Recently, the Director of the CIA, Michael Hayden has acknowledged that some detainees had been subject to waterboarding, in accordance with several OLC (Office of Legal Counsel) memos.